LSU Digital Commons LSU Digital Commons Ultraconserved elements are novel phylogenomic markers that Ultraconserved elements are novel phylogenomic markers that resolve placental mammal phylogeny when combined with resolve placental mammal phylogeny when combined with species-tree analysis species-tr

No abstract is available for this paper.

• Publication year

  year unknown

• Venue

  Unknown venue

• Publication date

  Unknown publication date

• Fields of study

  Not labeled

• Identifiers

  No identifiers available.

• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar

• No claims are published for this paper.

• No concepts are published for this paper.

• No references are available for this paper.

• From the shallows to the depths: A new probe set to target ultraconserved elements for Malacostraca

  2023cites this paper
• Phylogenomics, evolution of trophic traits and divergence times of hemiodontid fishes (Ostariophysi: Characiformes).

  2023cites this paper
• TREE-QMC: Improving quartet graph construction for scalable and accurate species tree estimation from gene trees

  2023cites this paper
• Characterization of Two Transposable Elements and an Ultra-Conserved Element Isolated in the Genome of Zootoca vivipara (Squamata, Lacertidae)

  2023cites this paper
• A novel probe set for the phylogenomics and evolution of RTA spiders

  2023cites this paper
• Genome Evolution and the Future of Phylogenomics of Non-Avian Reptiles

  2023cites this paper
• Ultraconserved elements resolve the phylogeny and corroborate patterns of molecular rate variation in herons (Aves: Ardeidae)

  2023cites this paper
• An Opiliones-specific ultraconserved element probe set with a near-complete family-level phylogeny.

  2023cites this paper
• Molecular phylogenetics of the Clupeiformes based on exon-capture data and a new classification of the order.

  2022cites this paper
• The rapid radiation of Bomarea (Alstroemeriaceae: Liliales), driven by the rise of the Andes

  2022cites this paper
• Unraveling the Myotis Morass: Ultraconserved-Element Analysis Reveals Introgression, Cryptic Diversity, and Taxonomic Trouble in the Most Species-rich Bat Genus

  2022cites this paper
• Metagenomic clustering reveals microbial contamination as an essential consideration in ultraconserved element design for phylogenomics with insect museum specimens

  2022cites this paper
• Phylogenomic analysis of the Neotropical fish subfamily Characinae using ultraconserved elements (Teleostei: Characidae).

  2022cites this paper
• Nuclear and Mitochondrial Phylogenomics of the Sifakas Reveal Cryptic Variation in the Diademed Sifaka

  2022cites this paper
• Predictors of sequence capture in a large-scale anchored phylogenomics project

  2022cites this paper
• Correction to: Phylogenomics of alligator lizards elucidate diversification patterns across the Mexican Transition Zone and support the recognition of a new genus

  2022cites this paper
• Closing a biogeographic gap: a new pettalid genus from South Australia (Arachnida : Opiliones : Cyphophthalmi : Pettalidae) with a UCE-based phylogeny of Cyphophthalmi

  2022influential citation
• Target sequence capture of Barnadesioideae (Compositae) demonstrates the utility of low coverage loci in phylogenomic analyses.

  2022cites this paper
• Defensive spines are associated with large geographic range but not diversification in spiny ants (Hymenoptera: Formicidae: Polyrhachis)

  2022cites this paper
• Taxon-specific ultraconserved element probe design for phylogenetic analyses of scale insects (Hemiptera: Sternorrhyncha: Coccoidea)

  2022cites this paper
• Euarchontoglires Challenged by Incomplete Lineage Sorting

  2022cites this paper
• Temporal rate of postmortem DNA degradation in archived tissue samples: evidence from liver and muscle

  2022cites this paper
• Conserved Signatures in Protein Sequences Reliably Demarcate Different Clades of Rodents/Glires Species and Consolidate Their Evolutionary Relationships

  2022cites this paper
• Using Ultraconserved Elements to Unravel Lagomorph Phylogenetic Relationships

  2022cites this paper
• Evolutionary history of the Australasian Scirtinae (Scirtidae; Coleoptera) inferred from ultraconserved elements

  2022cites this paper
• In Silico Assessment of Probe-Capturing Strategies and Effectiveness in the Spider Sub-Lineage Araneoidea (Order: Araneae)

  2022cites this paper
• Using Ultraconserved Elements to Unravel Lagomorph Phylogenetic Relationships

  2022cites this paper
• Single-locus species delimitation and ecological niche modelling provide insights into the evolution, historical distribution and taxonomy of the Pacific chorus frogs

  2021cites this paper
• Re-assessing the phylogenetic status and evolutionary relationship of Forest Owlet [Athene blewitti (Hume 1873)] using genomic data

  2021cites this paper
• Genome-Scale Profiling Reveals Noncoding Loci Carry Higher Proportions of Concordant Data

  2021influential citation
• Ultraconserved Elements Improve the Resolution of Difficult Nodes within the Rapid Radiation of Neotropical Sigmodontine Rodents (Cricetidae: Sigmodontinae).

  2021cites this paper
• Gene tree quality affects empirical coalescent branch length estimation

  2021cites this paper
• Nuclear phylogenomics, but not mitogenomics, resolves the most successful Late Miocene radiation of African mammals (Rodentia: Muridae: Arvicanthini).

  2021cites this paper
• Tempo and mode of evolution of Oryzomyine rodents (Rodentia, Cricetidae, Sigmodontinae): A phylogenomic approach.

  2021cites this paper
• Escaping the Fate of Sisyphus: Assessing Resistome Hybridization Baits for Antimicrobial Resistance Gene Capture

  2021cites this paper
• The Rufous Sengi is not Elephantulus —Multilocus reconstruction of evolutionary history of sengis from the subfamily Macroscelidinae

  2021cites this paper
• UCEasy: A software package for automating and simplifying the analysis of ultraconserved elements (UCEs)

  2021cites this paper
• Genome-wide ultraconserved elements resolve phylogenetic relationships and biogeographic history among Neotropical leaf-nosed bats in the genus Anoura (Phyllostomidae).

  2021cites this paper
• Interrogating Genomic Data in the Phylogenetic Placement of Treeshrews Reveals Potential Sources of Conflict

  2021influential citation
• Genome-wide phylogenetic study of Percomorpha providing robust support for previous molecular classification

  2021cites this paper
• Molecular Approaches for Analyzing Organismal and Environmental Interactions

  2020cites this paper
• Phylogenomics of the tropical plant family Ochnaceae using targeted enrichment of nuclear genes and 250+ taxa

  2020cites this paper
• Gene flow and rapid differentiation characterize a rapid insular radiation in the southwest Pacific (Aves: Zosterops)

  2020cites this paper
• Data, Time and Money: Evaluating the Best Compromise for Inferring Molecular Phylogenies of Non-Model Animal Taxa.

  2020cites this paper
• Diverse Phylogenomic Datasets Uncover a Concordant Scenario of Laurasiatherian Interordinal Relationships.

  2020cites this paper
• Gene tree estimation error with ultraconserved elements: An empirical study on Pseudapis bees.

  2020cites this paper
• New approaches to species delimitation and population structure of corals: two case studies using ultraconserved elements and exons

  2020cites this paper
• Using Transposable Elements as Tools to Better Understand Evolution at the Genomic Level

  2020cites this paper
• Protein‐encoding ultraconserved elements provide a new phylogenomic perspective of Oestroidea flies (Diptera: Calyptratae)

  2020cites this paper
• Phylogenomics of the Neotropical fish family Serrasalmidae with a novel intrafamilial classification (Teleostei: Characiformes).

  2020cites this paper
• Is Phylotranscriptomics as Reliable as Phylogenomics?

  2020cites this paper
• Primers to highly conserved elements optimized for qPCR‐based telomere length measurement in vertebrates

  2020cites this paper
• Quest for the Best Evolutionary Model

  2020cites this paper
• Intragenic conflict in phylogenomic datasets

  2020cites this paper
• New approaches to species delimitation and population structure of anthozoans: Two case studies of octocorals using ultraconserved elements and exons

  2020cites this paper
• New alignment-based sequence extraction software (ALiBaSeq) and its utility for deep level phylogenetics

  2020cites this paper
• A deeper meaning for shallow‐level phylogenomic studies: nested anchored hybrid enrichment offers great promise for resolving the tiger moth tree of life (Lepidoptera: Erebidae: Arctiinae)

  2020cites this paper
• Tools for Monitoring Genetic Diversity in Mammals: Past, Present, and Future

  2020cites this paper
• Phylogenomic analysis of the beetle suborder Adephaga with comparison of tailored and generalized ultraconserved element probe performance

  2020cites this paper
• A polyvalent and universal tool for genomic studies in gastropod molluscs (Heterobranchia).

  2020cites this paper
• Hyperconserved Elements in Human 5′UTRs Shape Essential Post-transcriptional Regulatory Networks

  2020cites this paper
• Phylogenomic analysis of trichomycterid catfishes (Teleostei: Siluriformes) inferred from ultraconserved elements

  2020cites this paper
• Using UCEs to track the influence of sea-level change on leafy seadragon populations.

  2020cites this paper
• Larger, unfiltered datasets are more effective at resolving phylogenetic conflict: Introns, exons, and UCEs resolve ambiguities in Golden-backed frogs (Anura: Ranidae; genus Hylarana).

  2020cites this paper
• A linked‐read approach to museomics: Higher quality de novo genome assemblies from degraded tissues

  2020cites this paper
• Multilocus phylogeny and a new classification for African, Asian and Indian supple and writhing skinks (Scincidae: Lygosominae)

  2019cites this paper
• Champagne: Whole-genome phylogenomic character matrix method places Myomorpha basal in Rodentia

  2019cites this paper
• Ultra-Conserved Elements and morphology reciprocally illuminate conflicting 1 phylogenetic hypotheses in Chalcididae (Hymenoptera, Chalcidoidea) 2

  2019cites this paper
• Tempo and mode of allopatric divergence in the weakly electric fish Sternopygus dariensis in the Isthmus of Panama

  2019cites this paper
• swsc: A sitewise UCE partitioner

  2019cites this paper
• Taxonomic revision of the dolphin genus Lagenorhynchus

  2019cites this paper
• Convergent regulatory evolution and loss of flight in paleognathous birds

  2019cites this paper
• The effect of alignment uncertainty, substitution models and priors in building and dating the mammal tree of life

  2019cites this paper
• Exploring gene tree incongruence at the origin of ants and bees (Hymenoptera)

  2019cites this paper
• Exons, Introns, and UCEs Reveal Conflicting Phylogenomic Signals in a Rapid Radiation of Frogs (Ranidae: Hylarana)

  2019cites this paper
• FrogCap: A modular sequence capture probe set for phylogenomics and population genetics for all frogs, assessed across multiple phylogenetic scales

  2019cites this paper
• ILS-Aware Analysis of Low-Homoplasy Retroelement Insertions: Inference of Species Trees and Introgression Using Quartets.

  2019cites this paper
• Diversification rates have no effect on the convergent evolution of foraging strategies in the most speciose genus of bats, Myotis *

  2019cites this paper
• Phylogenomic Reconstruction of the Neotropical Poison Frogs (Dendrobatidae) and Their Conservation

  2019cites this paper
• Post K-Pg diversification of the mammalian order Eulipotyphla as suggested by phylogenomic analyses of ultra-conserved elements.

  2019cites this paper
• Relicts and radiations: Phylogenomics of an Australasian lizard clade with east Gondwanan origins (Gekkota: Diplodactyloidea).

  2019cites this paper
• Understanding UCEs: A Comprehensive Primer on Using Ultraconserved Elements for Arthropod Phylogenomics

  2019cites this paper
• The Contribution of Genomics to Bird Conservation

  2019cites this paper
• Resolving the Avian Tree of Life from Top to Bottom: The Promise and Potential Boundaries of the Phylogenomic Era

  2019cites this paper
• Extracting Phylogenetic Signal from Phylogenomic Data: Higher-Level Relationships of the Nightbirds (Strisores).

  2019cites this paper
• An ABBA-BABA Test for Introgression Using Retroposon Insertion Data

  2019cites this paper
• Museum genomics reveals the speciation history of Dendrortyx wood-partridges in the Mesoamerican highlands.

  2019cites this paper
• Recombination-Aware Phylogenomics Reveals the Structured Genomic Landscape of Hybridizing Cat Species

  2019cites this paper
• Emerging genomic applications in mammalian ecology, evolution, and conservation

  2019cites this paper
• Advances in systematics of bats: towards a consensus on species delimitation and classifications through integrative taxonomy

  2019cites this paper
• Ultraconserved element (UCE) probe set design: Base genome and initial design parameters critical for optimization

  2019cites this paper
• Comparative Functional and Phylogenomic Analyses of Host Association in the Remoras (Echeneidae), a Family of Hitchhiking Fishes

  2019cites this paper
• Retroposon Insertions within a Multispecies Coalescent Framework Suggest that Ratite Phylogeny is not in the ‘Anomaly Zone’

  2019cites this paper
• Multilocus phylogeny and cryptic diversity of white-toothed shrews (Mammalia, Eulipotyphla, Crocidura) in China

  2019cites this paper
• Genomic Characterization and Curation of UCEs Improves Species Tree Reconstruction

  2019cites this paper
• Ultra-Conserved Elements and morphology reciprocally illuminate conflicting phylogenetic hypotheses in Chalcididae (Hymenoptera, Chalcidoidea)

  2019cites this paper
• Speciation, gene flow, and seasonal migration in Catharus thrushes (Aves:Turdidae).

  2019cites this paper
• Impacts of Inference Method and Data set Filtering on Phylogenomic Resolution in a Rapid Radiation of Ground Squirrels (Xerinae: Marmotini)

  2018cites this paper
• Quantifying GC-Biased Gene Conversion in Great Ape Genomes Using Polymorphism-Aware Models

  2018cites this paper
• Pinniped Diphyly and Bat Triphyly: More Homology Errors Drive Conflicts in the Mammalian Tree

  2018cites this paper